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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGACAAAGATGTTTGGGTTATGAATGTAGTGCCAGAAAATGAACAAAAAACTCTCAAGATTATATACGACAGAGGACTTATAGGAACAGTTCACAACTGgtatggcttgtctcttcattgaaacaattatctccccaaggttatattatggcaaatcctgttaaattttttgtttcatttttctaattctaagttctct...

Basic information

species Glycine max
transcript GLYMA19G34890.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G34890.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv07s0005g03630.t01 (Vitis vinifera), 5'ss of exon 6
AGGACAAAGATGTTTGGGTTATGAATGTAGTGCCAGAAAATGAACAAAAAACTCTCAAGATTATATACGACAGAGGACTTATAGGAACAGTTCACAACTGgtatggcttgtctcttcattgaaacaattatctccccaaggttatattatggcaaatcctgttaaattttttgtttcatttttctaattctaagttctct-----
| |||||| |||| ||||| |||||||| ||  ||||| ||| ||  || ||||||||||| ||||| |||||||| || ||||| ||  |||| ||||||||||  ||   | || ||| ||||     | |     |    | |  |  | ||||  ||  ||   | |    ||| ||     | || ||      |     
AAGACAAAAATGTGTGGGTGATGAATGTGGTTGCAGAAGATGGACCCAACACTCTCAAGATAATATATGACAGAGGCCTGATAGGCACTATTCATAACTGgtatg--ttcaattttaatttaaacgccagtattgaggaaaagaaagaaacg-aaatattgagaatcgtataacgtcaattcat--actcaaaccatcatgacat
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|19934650|gb|BQ079680.1|BQ079680
EST:     ACTCTCAAGATTATATACGACAGAGGACTTATAGGAACAGTTCACAACTG                         GTGTGAAGCTTTTTCAACCTACCCTCGAACGTATGATCTACTCCATGCATG
genomic: ACTCTCAAGATTATATACGACAGAGGACTTATAGGAACAGTTCACAACTGgtatggcttg ... atgctgacagGTGTGAAGCTTTTTCAACCTACCCTCGAACGTATGATCTACTCCATGCATG
EST: gi|193599320|gb|FK549365.1|FK549365
EST:     ACTCTCAAGATTATATACGACAGAGGACTTATAGGAACAGTTCACAACTG                         GTGTGAAGCTTTTTCAACCTACCCTCGAACGTATGATCTACTCCATGCATG
genomic: ACTCTCAAGATTATATACGACAGAGGACTTATAGGAACAGTTCACAACTGgtatggcttg ... atgctgacagGTGTGAAGCTTTTTCAACCTACCCTCGAACGTATGATCTACTCCATGCATG
EST: gi|23733206|gb|BU764789.1|BU764789
EST:     ACTCTCAAGATTATATACGACAGAGGACTTATAGGAACAGTTCACAACTG                         GTGTGAAGCTTTTTCAACCTACCCTCGAACGTATGATCTACTCCATGCATG
genomic: ACTCTCAAGATTATATACGACAGAGGACTTATAGGAACAGTTCACAACTGgtatggcttg ... atgctgacagGTGTGAAGCTTTTTCAACCTACCCTCGAACGTATGATCTACTCCATGCATG
EST: gi|58019201|gb|CX705943.1|CX705943
EST:     ACTCTCAAGATTATATACGACAGAGGACTTATAGGAACAGTTCACAACTG                         GTGTGAAGCTTTTTCAACCTACCCTCGAACGTATGATCTACTCCATGCATG
genomic: ACTCTCAAGATTATATACGACAGAGGACTTATAGGAACAGTTCACAACTGgtatggcttg ... atgctgacagGTGTGAAGCTTTTTCAACCTACCCTCGAACGTATGATCTACTCCATGCATG
EST: gi|8286313|gb|BE023872.1|BE023872
EST:     TATAGGAACAGTTCACAACTG                         GTGTGAAGCTTTTTCAACCTACCCTCGAACGTATGATCTACTCCATGCATG
genomic: TATAGGAACAGTTCACAACTGgtatggcttg ... atgctgacagGTGTGAAGCTTTTTCAACCTACCCTCGAACGTATGATCTACTCCATGCATG
EST: gi|193433021|gb|FK395715.1|FK395715
EST:     ACTCTCAAGATTATATACGACAGAGGACTTATAGGAACAGTTCACAACTG                         GTGTGAAGCTTTTTCAA
genomic: ACTCTCAAGATTATATACGACAGAGGACTTATAGGAACAGTTCACAACTGgtatggcttg ... atgctgacagGTGTGAAGCTTTTTCAA
EST: gi|9820214|gb|BE555724.1|BE555724
EST:     ACTCTCAAGATTATATACGACAGAGGACTTATAGGAACAGTTCACAACTG                         GTGTGAAGCTTTTTCAACCTACCCTCGAACGTATGATCTACTCCATGCATG
genomic: ACTCTCAAGATTATATACGACAGAGGACTTATAGGAACAGTTCACAACTGgtatggcttg ... atgctgacagGTGTGAAGCTTTTTCAACCTACCCTCGAACGTATGATCTACTCCATGCATG
EST: gi|58022379|gb|CX709120.1|CX709120
EST:     ACTCTCAAGATTATATACGACAGAGGACTTATAGGAACAGTTCACAACTG                         GTGTGAAGCTTTTTCAACCTACCCTCGAACGTATGATCTACTCCATGCATG
genomic: ACTCTCAAGATTATATACGACAGAGGACTTATAGGAACAGTTCACAACTGgtatggcttg ... atgctgacagGTGTGAAGCTTTTTCAACCTACCCTCGAACGTATGATCTACTCCATGCATG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGGACAAAGATGTTTGGGTTATGAATGTAGTGCCAGAAAATGAACAAAAAACTCTCAAGATTATATACGACAGAGGACTTATAGGAACAGTTCACAACTGgtatggcttgtctcttcattgaaacaattatctccccaaggttatattatggcaaatcctgttaaattttttgtttcatttttctaattctaagttctct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA